RegulonDB RegulonDB 10.10: Gene Form
   

ybbA gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

rhsD ybbP ybbO ybbA tesA anti-anti-terminator anti-terminator terminator TSS_665 TSS_665 rhsDp8 rhsDp8 tesAp tesAp TSS_664 TSS_664 ybbOp4 ybbOp4 TSS_663 TSS_663 ybbNp2 ybbNp2 ybbNp1 ybbNp1

Gene      
Name: ybbA    Texpresso search in the literature
Synonym(s): ECK0489, EG11657, b0495
Genome position(nucleotides): 519733 --> 520419 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 56.62
External database links:  
ASAP:
 ABE-0001717
ECHOBASE:
 EB1609
ECOLIHUB:
 ybbA
OU-MICROARRAY:
 b0495
STRING:
 511145.b0495
COLOMBOS: ybbA


Product      
Name: putative ABC transporter ATP-binding protein YbbA
Synonym(s): YbbA
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 24.533
Isoelectric point: 5.588
Motif(s):
 
Type Positions Sequence
167 -> 174 VLFADEPT
43 -> 50 GESGSGKS
88 -> 89 KH
147 -> 150 LSGG
27 -> 174 TGVELVVKRGETIALVGESGSGKSTLLAILAGLDDGSSGEVSLVGQPLHNMDEEARAKLRAKHVGFVFQSFMLIPTLNALENVELPALLRGESSAESRNGAKALLEQLGLGKRLDHLPAQLSGGEQQRVALARAFNGRPDVLFADEPT

 
Classification:
Multifun Terms (GenProtEC)  
  4 - transport --> 4.3 - Primary Active Transporters --> 4.3.A - Pyrophosphate Bond (ATP; GTP; P2) Hydrolysis-driven Active Transporters --> 4.3.A.1 - The ATP-binding Cassette (ABC) Superfamily + ABC-type Uptake Permeases --> 4.3.A.1.a - ABC superfamily ATP binding cytoplasmic component
Gene Ontology Terms (GO)  
cellular_component GO:0005886 - plasma membrane
GO:0043190 - ATP-binding cassette (ABC) transporter complex
molecular_function GO:0016887 - ATP hydrolysis activity
GO:0000166 - nucleotide binding
GO:0005524 - ATP binding
Note(s): Note(s): ...[more].
Reference(s): [1] Jindal S., et al., 2019
External database links:  
ECOCYC:
 YBBA-MONOMER
ECOLIWIKI:
 b0495
INTERPRO:
 IPR027417
INTERPRO:
 IPR017871
INTERPRO:
 IPR003593
INTERPRO:
 IPR003439
MODBASE:
 P0A9T8
PFAM:
 PF00005
PRIDE:
 P0A9T8
PROSITE:
 PS00211
PROSITE:
 PS50893
REFSEQ:
 NP_415028
SMART:
 SM00382
SMR:
 P0A9T8
UNIPROT:
 P0A9T8


Operon      
Name: ybbAP         
Operon arrangement:
Transcription unit        Promoter
ybbAP


Elements in the selected gene context region unrelated to any object in RegulonDB      

  Type Name Post Left Post Right Strand Notes Evidence (Confirmed, Strong, Weak) References
  promoter ybbNp2 518568 reverse The sigma factor was determined
Read more > 		[AIBSCS], [AIPP], [ICWHO] [2], [3]
  promoter TSS_663 518661 reverse nd [RS-EPT-CBR] [4]
  promoter ybbOp4 519329 reverse nd [ICWHO] [2]
  promoter TSS_664 519797 reverse nd [RS-EPT-CBR] [4]
  promoter rhsDp8 523066 forward nd [ICWHO] [2]
  promoter TSS_665 526934 forward nd [RS-EPT-CBR] [4]


Evidence    

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [AIPP] Automated inference of promoter position

 [ICWHO] Inferred computationally without human oversight

 [RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates


Reference(s)    

 [1] Jindal S., Yang L., Day PJ., Kell DB., 2019, Involvement of multiple influx and efflux transporters in the accumulation of cationic fluorescent dyes by Escherichia coli., BMC Microbiol 19(1):195

 [2] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78

 [3] Zhao K., Liu M., Burgess RR., 2005, The global transcriptional response of Escherichia coli to induced sigma 32 protein involves sigma 32 regulon activation followed by inactivation and degradation of sigma 32 in vivo., J Biol Chem 280(18):17758-68

 [4] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

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